Snf1-dependent and Snf1-independent pathways of constitutive ADH2 expression in Saccharomyces cerevisiae

Genetics

Volumn 172, Issue 4, 2006, Pages 2123-2138

  Voronkova, Valentina ^a   Kacherovsky, Nataly ^a   Tachibana, Christine ^a   Yu, Diana ^a   Young, Elton T ^a  

^a UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOL DEHYDROGENASE; CDC10 PROTEIN; FAB1 PROTEIN; FUNGAL PROTEIN; GLUCOSE; ISOENZYME; MOT1 PROTEIN; PROTEIN; PROTEIN SNF1; REPRESSOR PROTEIN; SEPTIN; SNF1 PROTEIN; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR ADR1; UNCLASSIFIED DRUG; VPS35 PROTEIN;

ALLELE; ARTICLE; CELL VACUOLE; CHROMATIN; CONTROLLED STUDY; CYTOSKELETON; FUNGUS MUTANT; GENE DELETION; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE FUNCTION; GENE ISOLATION; GENE REPRESSION; GENETIC CODE; GENETIC COMPLEMENTATION; GENETIC SCREENING; MOLECULAR CLONING; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; SACCHAROMYCES CEREVISIAE; TEMPERATURE SENSITIVE MUTANT;

ALCOHOL DEHYDROGENASE; ALLELES; CHROMATIN; GENE DELETION; GENE EXPRESSION REGULATION, FUNGAL; GENETIC COMPLEMENTATION TEST; GLUCOSE; MODELS, GENETIC; MUTATION; PLASMIDS; PROTEIN-SERINE-THREONINE KINASES; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; UP-REGULATION;

FUNGI; SACCHAROMYCES CEREVISIAE;

EID: 33646203751     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.105.048231     Document Type: Article

References (69)

1. AUBLE, D. T., and S. HAHN, 1993 An ATP-dependent inhibitor of TBP binding to DNA. Genes Dev. 7: 844-856.
2. AUBLE, D. T., K. E. HANSEN, C. G. MUELLER, W. S. LANE, J. THORNER et al., 1994 Mot1, a global repressor of RNA polymerase II transcription, inhibits TBP binding to DNA by an ATP-dependent mechanism. Genes Dev. 8: 1920-1934.
3. AUBLE, D. T., D. WANG, K. W. POST and S. HAHN, 1997 Molecular analysis of the SNF2/SWI2 protein family member MOT1, an ATP-driven enzyme that dissociates TATA-binding protein from DNA. Mol. Cell. Biol. 17: 4842-4851.
4. BLUMBERG, H., A. EISEN, A. SLEDZIEWSKI, D. BADER and E. T. YOUNG, 1987 Two zinc fingers of a yeast regulatory protein shown by genetic evidence to be essential for its function. Nature 328: 443-445.
5. BOEKE, J. D., J. TRUEHEART, G. NATSOULIS and G. R. FINK, 1987 5-Fluoroorotic acid as a selective agent in yeast molecular genetics. Methods Enzymol. 154: 164-175.
6. BONANGELINO, C. J., J. J. NAU, J. E. DUEX, M. BRINKMAN, A. E. WURMSER et al., 2002 Osmotic stress-induced increase of phosphatidylinositol 3,5-bisphosphate requires Vac14p, an activator of the lipid kinase Fab1p. J. Cell Biol. 156: 1015-1028.
7. BROWN, C. R., J. A. MCCANN, G. G. HUNG, C. P. ELCO and H. L. CHIANG, 2002 Vid22p, a novel plasma membrane protein, is required for the fructose-1,6-bisphosphatase degradation pathway. J. Cell Sci. 115: 655-666.
8. BURDA, P., S. M. PADILLA, S. SARKAR and S. D. EMR, 2002 Retromer function in endosome-to-Golgi retrograde transport is regulated by the yeast Vps34 PtdIns 3-kinase. J. Cell Sci. 115: 3889-3900.
9. CARLSON, M., 1999 Glucose repression in yeast. Curr. Opin. Microbiol. 2: 202-207.
10. CASAMAYOR, A., and M. SNYDER, 2003 Molecular dissection of a yeast septin: distinct domains are required for septin interaction, localization, and function. Mol. Cell. Biol. 23: 2762-2777.
11. CHARBON, G., K. D. BREUNIG, R. WATTIEZ, J. VANDENHAUTE and I. NOEL-GEORIS, 2004 Key role of Ser562/661 in Snf1-dependent regulation of Cat8p in Saccharomyces cerevisiae and Kluyveromyces lactis. Mol. Cell. Biol. 24: 4083-4091.
12. CHERRY, J. R., T. R. JOHNSON, C. DOLLARD, J. R. SHUSTER and C. L. DENIS, 1989 Cyclic AMP-dependent protein kinase phosphorylates and inactivates the yeast transcriptional activator ADR1. Cell 56: 409-419.
13. CIRIACY, M., 1976 Cis-dominant regulatory mutations affecting the formation of glucose-repressible alcohol dehydrogenase (ADHII) in Saccharomyces cerevisiae. Mol. Gen. Genet. 145: 327-333.
14. CIRIACY, M., 1979 Isolation and characterization of further cis- and trans-acting regulatory elements involved in the synthesis of glucose-repressible alcohol dehydrogenase (ADHII) in Saccharomyces cerevisiae. Mol. Gen. Genet. 176: 427-431.
15. COLLART, M. A., 1996 The NOT, SPT3, and MOT1 genes functionally interact to regulate transcription at core promoters. Mol. Cell. Biol. 16: 6668-6676.
16. DARST, R. P., D. WANG and D. T. AUBLE, 2001 MOT1-catalyzed TBP-DNA disruption: uncoupling DNA conformational change and role of upstream DNA. EMBO J. 20: 2028-2040.
17. DAVIS, J. L., R. KUNISAWA and J. THORNER, 1992 A presumptive helicase (MOT1 gene product) affects gene expression and is required for viability in the yeast Saccharomyces cerevisiae. Mol. Cell. Biol. 12: 1879-1892.
18. DENIS, C. L., 1984 Identification of new genes involved in the regulation of yeast alcohol dehydrogenase II. Genetics 108: 833-844.
19. DENIS, C. L., 1987 The effects of ADR1 and CCR1 gene dosage on the regulation of the glucose-repressible alcohol dehydrogenase from Saccharomyces cerevisiae. Mol. Gen. Genet. 208: 101-106.
20. DENIS, C. L., and C. GALLO, 1986 Constitutive RNA synthesis for the yeast activator ADR1 and identification of the ADR1-5c mutation: implications in posttranslational control of ADR1. Mol. Cell. Biol. 6: 4026-4030.
21. DERISI, J. L., V. R. IYER and P. O. BROWN, 1997 Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278: 680-686.
22. DOMBEK, K. M., and E. T. YOUNG, 1997 Cyclic AMP-dependent protein kinase inhibits ADH2 expression in part by decreasing expression of the transcription factor gene ADR1. Mol. Cell. Biol. 17: 1450-1458.
23. DOMBEK, K. M., S. CAMIER and E. T. YOUNG, 1993 ADH2 expression is repressed by REG1 independently of mutations that alter the phosphorylation of the yeast transcription factor ADR1. Mol. Cell. Biol. 13: 4391-4399.
24. DOMBEK, K. M., V. VORONKOVA, A. RANEY and E. T. YOUNG, 1999 Functional analysis of the yeast Glc7-binding protein Reg1 identifies a protein phosphatase type 1-binding motif as essential for repression of ADH2 expression. Mol. Cell. Biol. 19: 6029-6040.
25. DOMBEK, K. M., N. KACHEROVSKY and E. T. YOUNG, 2004 The Reg1-interacting proteins, Bmh1, Bmh2, Ssb1, and Ssb2, have roles in maintaining glucose repression in Saccharomyces cerevisiae. J. Biol. Chem. 279: 39165-39174.
26. FLESCHER, E., K. MADDEN and M. SNYDER, 1993 Componens required for cytokinesis are important for bud site selection in yeast. J. Cell Biol. 122: 373-386.
27. FRAZIER, J. A., M. L. WONG, M. S. LONGTINE, J. R. PRINGLE, M. MANN et al., 1998 Polymerization of purified yeast septins: evidence that organized filament arrays may not be required for septin function. J. Cell Biol. 143: 737-749.
28. GANCEDO, J. M., 1998 Yeast carbon catabolite repression. Microbiol. Mol. Biol. Rev. 62: 334-361.
29. GARY, J. D., T. K. SATO, C. J. STEFAN, C. J. BONANGELINO, L. S. WEISMAN et al., 2002 Regulation of Fab1 phosphatidylinositol 3-phosphate 5-kinase pathway by Vac7 protein and Fig4, a polyphosphoinositide phosphatase family member. Mol. Biol. Cell 13: 1238-1251.
30. GEISBERG, J. V., and K. STRUHL, 2004 Cellular stress alters the transcriptional properties of promoter-bound Mot1-TBP complexes. Mol. Cell 14: 479-489.
31. GIAEVER, G., A. M. CHU, L. NI, C. CONNELLY, L. RILES et al., 2002 Functional profiling of the Saccharomyces cerevisiae genome. Nature 418: 387-391.
32. GUARENTE, L., 1983 Yeast Promoters and lacZ Fusions Designed to Study Expression of Cloned Genes in Yeast. (Methods in Enzymology, Vol. 101, pp. 181-191). Academic Press, San Diego.
33. GULDENER, U., S. HECK, T. FIEDLER, J. BEINHAUER and J. H. HEGEMANN, 1996 A new efficient gene disruption cassette for repeated use in budding yeast. Nucleic Acids Res. 24: 2519-2524.
34. GUTHRIE, C., and J. R. FINK, 2002 Guide to Yeast Genetics and Molecular Biology. (Methods in Enzymology, Vol. 350). Academic Press, San Diego.
35. HARDIE, D. G., D. CARLING and M. CARLSON, 1998 The AMPactivated/SNF1 protein kinase subfamily: Metabolic sensors of the eukaryotic cell? Annu. Rev. Biochem. 67: 821-855.
36. HARTWELL, L., 1971 Genetic control of the cell division cycle in yeast IV. Genes controlling bud emergence and cytokinesis. Exp. Cell Res.. 69: 265-276.
37. HONG, S. P., F. C. LEIPER, A. WOODS, D. CARLING and M. CARLSON, 2003 Activation of yeast Snf1 and mammalian AMP-activated protein kinase by upstream kinases. Proc. Natl. Acad. Sci. USA 100: 8839-8843.
38. IRANI, M., W. E. TAYLOR and E. T. YOUNG, 1987 Transcription of the ADH2 gene in Saccharomyces cerevisiae is limited by positive factors that bind competitively to its intact promoter region on multicopy plasmids. Mol. Cell. Biol. 7: 1233-1241.
39. JIANG, R., and M. CARLSON, 1997 The Snf1 protein kinase and its activating subunit, Snf4, interact with distinct domains of the Sip1/Sip2/Gal83 component in the kinase complex. Mol. Cell. Biol. 17: 2099-2106.
40. KARNITZ, L., M. MORRISON and E. T. YOUNG, 1992 Identification and characterization of three genes that affect expression of ADH2 in Saccharomyces cerevisiae. Genetics 132: 351-359.
41. KUSHNIROV, V., 2000 Rapid and reliable protein extraction from yeast. Yeast 16: 857-860.
42. LESTER, R., and M. R. STEINER, 1968 The occurrence of diphosphoinositides and triphosphoinositides in Saccharomyces cerevisiae. J. Biol. Chem. 243: 4889-4893.
43. LONGTINE, M. S., and E. BI, 2003 Regulation of septin organization and function in yeast. Trends Cell Biol. 13: 403-409.
44. MULDROW, T. A., A. M. CAMPBELL, P. A. WEIL and D. T. AUBLE, 1999 MOT1 can activate basal transcription in vitro by regulating the distribution of TATA binding protein between promoter and nonpromoter sites. Mol. Cell. Biol. 19: 2835-2845.
45. ODOM, A. R., A. STAHLBERG, S. R. WENTE and J. D. YORK, 2000 A role for nuclear inositol 1,4,5-trisphosphate kinase in transcriptional control. Science 287: 2026-2029.
46. ODORIZZI, G., M. BABST and S. D. EMR, 2000 Phosphoinositide signaling and the regulation of membrane trafficking in yeast. Trends Biochem. Sci. 25: 229-235.
47. PARAVICINI, G., B. F. HORAZDOVSKY and S. D. EMR, 1992 Alternative pathways for the sorting of soluble vacuolar proteins in yeast: a vps35 null mutant missorts and secretes only a subset of vacuolar hydrolases. Mol. Biol. Cell 3: 415-427.
48. RAHNER, A., A. SCHOLER, E. MARTENS, B. GOLLWITZER and H. J. SCHULLER, 1996 Dual influence of the yeast Cat1p (Snf1p) protein kinase on carbon source-dependent transcriptional activation of gluconeogenic genes by the regulatory gene CAT8. Nucleic Acids Res. 24: 2331-2337.
49. RAHNER, A., M. HIESINGER and H. J. SCHULLER, 1999 Deregulation of gluconeogenic structural genes by variants of the transcriptional activator Cat8p of the yeast Saccharomyces cerevisiae. Mol. Microbiol. 34: 146-156.
50. RUSSELL, D. W., M. SMITH, D. COX, V. M. WILLIAMSON and E. T. YOUNG, 1983 DNA sequences of two yeast promoter-up mutants. Nature 304: 652-654.
51. SAIARDI, A., J. J. CAFFREY, S. H. SNYDER and S. B. SHEARS, 2000 The inositol hexakisphosphate kinase family. Catalytic flexibility and function in yeast vacuole biogenesis. J. Biol. Chem. 275: 24686-24692.
52. SANZ, P., G. R. ALMS, T. A. HAYSTEAD and M. CARLSON, 2000 Regulatory interactions between the Reg1-Glc7 protein phosphatase and the Snf1 protein kinase. Mol. Cell. Biol. 20: 1321-1328.
53. SCHMIDT, M. C., and R. R. MCCARTNEY, 2000 beta-subunits of Snf1 kinase are required for kinase function and substrate definition. EMBO J. 19: 4936-4943.
54. SCHULLER, H. J., 2003 Transcriptional control of nonfermentative metabolism in the yeast Saccharomyces cerevisiae. Curr. Genet. 43: 139-160.
55. SEAMAN, M. N., J. M. MCCAFFERY and S. D. EMR, 1998 A membrane coat complex essential for endosome-to-Golgi retrograde transport in yeast. J. Cell Biol. 142: 665-681.
56. SLOAN, J. S., K. M. DOMBEK and E. T. YOUNG, 1999 Post-translational regulation of Adr1 activity is mediated by its DNA binding domain. J. Biol. Chem. 274: 37575-37582.
57. SREENIVASAN, A., and D. KELLOGG, 1999 The elm1 kinase functions in a mitotic signaling network in budding yeast. Mol. Cell. Biol. 19: 7983-7994.
58. STEGER, D. J., E. S. HASWELL, A. L. MILLER, S. R. WENTE and E. K. O'SHEA, 2003 Regulation of chromatin remodeling by inositol polyphosphates. Science 299: 114-116.
59. TACHIBANA, C., J. Y. YOO, J. B. TAGNE, N. KACHEROVSKY, T. I. LEE et al., 2005 Combined global localization analysis and transcriptome data identify genes that are directly coregulated by Adr1 and Cat8. Mol. Cell. Biol. 25: 2138-2146.
60. TOPALIDOU, I., M. PAPAMICHOS-CHRONAKIS, G. THIREOS and D. TZAMARIAS, 2004 Spt3 and Mot1 cooperate in nucleosome remodeling independently of TBP recruitment. EMBO J. 23: 1943-1948.
61. VERDONE, L., G. CAMILLONI, E. DI MAURO and M. CASERTA, 1996 Chromatin remodeling during Saccharomyces cerevisiae ADH2 gene activation. Mol. Cell. Biol. 16: 1978-1988.
62. VERDONE, L., F. CESARI, C. L. DENIS, E. DI MAURO and M. CASERTA, 1997 Factors affecting Saccharomyces cerevisiae ADH2 chromatin remodeling and transcription. J. Biol. Chem. 272: 30828-30834.
63. VERDONE, L., J. WU, K. VAN RIPER, N. KACHEROVSKY, M. VOGELAUER et al., 2002 Hyperacetylation of chromatin at the ADH2 promoter allows Adr1 to bind in repressed conditions. EMBO J. 21: 1101-1111.
64. WALTHER, K., and H. J. SCHULLER, 2001 Adr1 and Cat8 synergistically activate the glucose-regulated alcohol dehydrogenase gene ADH2 of the yeast Saccharomyces cerevisiae. Microbiology 147: 2037-2044.
65. WILLIAMSON, V. M., J. BENNETZEN, E. T. YOUNG, K. NASMYTH and B. D. HALL, 1980 Isolation of the structural gene for alcohol dehydrogenase by genetic complementation in yeast. Nature 283: 214-216.
66. WILLIAMSON, V. M., E. T. YOUNG and M. CIRIACY, 1981 Transposable elements associated with constitutive expression of yeast alcohol dehydrogenase II. Cell 23: 605-614.
67. YAMAMOTO, A., D. B. DEWALD, I. V. BORONENKOV, R. A. ANDERSON, S. D. EMR et al., 1995 Novel PI(4)P 5-kinase homologue, Fab1p, essential for normal vacuole function and morphology in yeast. Mol. Biol. Cell 6: 525-539.
68. YOUNG, E. T., N. KACHEROVSKY and K. VAN RIPER, 2002 Snf1 Protein Kinase Regulates Adr1 Binding to Chromatin but Not Transcriptional Activation. J. Biol. Chem. 277: 38095-38103.
69. YOUNG, E. T., K. M. DOMBEK, C. TACHIBANA and T. IDEKER, 2003 Multiple pathways are co-regulated by the protein kinase Snf1 and the transcription factors Adr1 and Cat8. J. Biol. Chem. 278: 26146-26158.